GgaINT0059919 @ galGal3
Intron Retention
Gene
ENSGALG00000006121 | PIK3C2A
Description
NA
Coordinates
chr5:12863723-12865735:-
Coord C1 exon
chr5:12865613-12865735
Coord A exon
chr5:12863891-12865612
Coord C2 exon
chr5:12863723-12863890
Length
1722 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TCAACACTTTTATTTTATAGAAT
3' ss Score
7.9
Exon sequences
Seq C1 exon
TTTTGAGAAATACTACTTGATTTGTTCTTTGACCCATAATGGAAAAGATCTCTTCAAACCTGTTCAGTCCAAGAAGGCTGGCGCATACAAGAACTTCTTCTACTTGATTAAATGGGATGAACT
Seq A exon
GTAAGTGACTTTAGAATACTAACTGCCCCTGCAAAATAGGTTGTTTTTTTTTTAGCTATACCTGCCTAGCTGCTGAATACACTCACTGTCAACTCTAACTCCTGATTCTACCCAAAGTGTTGAAAGAACAGTGTGTGAGGCTTGTGACCAAAATCAGAAATATTATTCTGATAGGTATTTGACCTTTCATTTTAAAAGTGGGAATGGAAATGCTGGACCATTGCCCTGTGCCAATGTATTTATAGAGTACAACTATAATGACTTGGGAAGATTGTAGGATTCTTTGTAATGGGAACGGCTTGCACTGCCTAAGGAATGATGAATAAAGCTTGTTTTTAAGCAGTTCTCAGACTTTCTAAATAGGGAAGAAAAGAAGCTGACTTGTATTGACGTTGATGCTGAATAGTTTTTTGTTCCAAATATATCACAGCAATTTTGTATCTAATTTATAAATGTAATTTAAAGTATTTCTATAAAGAGATCAGATGCGTAAGTGCTTAATCTGTCTATAGCATATGAGAACATTTTGAGCTACTAAAGCTGGATTTCTCTTTATGGAGCAGGGAAAGAGAGTAGAAAGGTAGAAGGAAGGGCATGCAGAGAAAAAACAGAACGGCAGGTGATATCTGAGAGGGAAAAATATTTTTCATTATTTTATACATATATATACACACACACATATTAAACATATATATTATTGTGTGTGTGTGTATATATATATATATATATAAAATAACACAACTTAACTCTTTTTGACTTAGTAGTTATGAGGCAGTCTGTCACTACTGAAGAGCCAGGTGAGTTCCATGTTGCTCTGTACCTCATTTCCTGACAATTTTTAAAGTTCAGAGGTGGACTCTGAAGAATACTCTAAAAGCCTGCAGTGACAAATTATTGTAGACCAGAAATGAAAGCTTCAGGTTCTGAAATACCTGCCACCTGACACTGCTTGGACTACCTTTTTTTTTTTGATGATGCAGTGAATTGTCAGGTCTTTTGCTGACAAGTGATAGTGTATTGCAGTGAAATATGTTAGACAGATGGCTTATAACCTGCTTAATATAGTTTGTGTGTTTTATAGTCTAACTGGCTTAGTAATATGCTCTGAGTACATACAAAAAAATCCATCTGTAAGTTACAGAAAATTCAAGAAAGAACACTTCAAGCAGTGAAAAGTGTCAACAAAACTCAGAGTTGGAATTGTCCAGTGAGGTGTATACTCTTCAGCTGTGACCTTTATGGTTGCCAGCTTTGTACTGTTTGGTGAATTTAGCTTACAGTAGTTCTTAAGGGATTGTTTCATTGGGATGGGAAAATATTGTCAGCTGGCTCTCCAGTCAGATCTGAGAGTTGAGGAGGTAGCTAACATAGAATTCTATGTGTCCTTGTAATGAGCAGAGTGGGAAGACGGGTTGTGCTAGTCTGTGCAGTTCTGTGCAAGAAATGTGACTTAATAGAAGATGAAAGAGGCTTGTTGAACCGCCTATTAAAAAGTGTTGTTCTAAATCTAGCTACCATACAGAATTGTAGTTTAGCAGATTTTATGAACTATTGGTGCAGAAGATACTGGAGTGGAATGTAATTGCACAAAAGTTTAGCGTTTGTCCTTCAGTAATTTGAAAGCAAAAGGCTTTGACAGATTATATGGATGACAAGCCTGTAATTTACTAATAATTGACTTTCCTTCTATGACTGATTTATTTCAACACTTTTATTTTATAG
Seq C2 exon
AATAATTTTCCCCATCCAGATTTCACAACTGCCTTTGGAATCAGTCTTATGTCTGACTTTGTTTGGAATCCTAAATCAAAGTAGTGGAAGTTCTCCTGATTCAAATAAGCAGAGAAAGGGCCCTGAAATGTTGGGTCAGGTTTCTTTACCTCTTTTTGATTTTAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006121:ENSGALT00000009877:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.175
Domain overlap (PFAM):
C1:
PF0079219=PI3K_C2=PU(29.3=97.6)
A:
NA
C2:
PF0079219=PI3K_C2=FE(40.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTACTTGATTTGTTCTTTGACCCA
R:
CGCCTAAAATCAAAAAGAGGTAAAGA
Band lengths:
280-2002
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]